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Pathway downstream analysis
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Genomic region annotation
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Analysis
Pathway downstream analysis
Databases Select All
KEGG
NetPath
Reactome
WikiPathways
PANTHER
PID
HumanCyc
CTD
SMPDB
INOH
Genes
Paste your data:
Upload a file:
Example of Upload File
Threshold
FDR Adjust
GeneNumber
Min:
Max:
Tissue Type :
{{s}}
SE-Gene Linking Strategies :
ALL
Overlap
Proximal
Closest
Closest active
Fimo:
1.0E-9
1.0E-8
1.0E-7
1.0E-6
TF Class :
Basic domains
Zinc-coordinating DNA-binding domains
Helix-turn-helix domains
Other all-alpha-helical DNA-binding domains
alpha-Helices exposed by beta-structures
Immunoglobulin fold
beta-Hairpin exposed by an alpha/beta-scaffold
beta-Sheet binding to DNA
beta-Barrel DNA-binding domains
Yet undefined DNA-binding domains
UNKNOW
TcoF-DB_TcoF
ENCODE_TF
TcoF-DB_TF
Example
Analyze
Reset
Function introduction
Guidance
If users input an gene set (gene symbol), SEanalysis will identify enriched
pathways
①
in up to 10 pathway databases,
SEs
③
bound by terminal
TFs
②
of these pathways and SE-associated
genes
④
.
1) Databases:
Select at least one database of pathways.
2) Genes:
Input a gene symbol set.
3) Threshold:
Set P-Value and FDR thresholds.
4) GeneNumber:
Limit the number range of genes in pathways.
5) Tissue Type:
Select one sample tissue type or all.
6) SE-Gene Linking Strategies:
Select different annotation strategies to link SEs with target genes.
7) Fimo:
Set different statistical thresholds to control for false positivity.
8) TF Class:
Select at least one classification.